Aptamer-target interaction descriptor
Aptamer-target interaction information
Interaction ID: 128
Aptamer sequence: GGTATTGAGGGTCGCATCCACTGGTCGTTGTTGTCTGTTGTCTGTTATGTTGTTTCGTGATGGCTCTAACTCTCCTCT
Target unique ID: P01552
Aptamer ID Aptamer descriptor Target chemistry Target name Affinity Binding Conditions/Buffer PubMed ID
Apta_127 APT_SEB1 Protein ETXB_STAAU N/A 10 mM phosphate buffer, 2.7 mM KCl, 140 mM NaCl, 0.05% Tween, pH 7.4 22438927
Structure information of aptamer
Aptamer Sequence: GGTATTGAGGGTCGCATCCACTGGTCGTTGTTGTCTGTTGTCTGTTATGTTGTTTCGTGATGGCTCTAACTCTCCTCT
The optimal secondary structure in dot-bracket notation: ......(((((..((..((...))..))........((((.((((((((......))))))))...))))..))))).
The centroid secondary structure in dot-bracket notation: ......((((...............................((((((((......))))))))..........)))).
The MFE structure
The Centroid structure
The mountain plot representation
Aptamer information
Type Detail Type Detail
Aptamer ID Apta_127 Description APT_SEB1
Aptamer chemistry DNA Length 78 nt
GC content 47.4% Molecular weight 24,262.24 Da
Molarity of 1 μg/μl solution 41.22 μM Number of G-quadruplexes No QGRS found
G-Score N/A Function Targeted binding
Sequence GGTATTGAGGGTCGCATCCACTGGTCGTTGTTGTCTGTTGTCTGTTATGTTGTTTCGTGATGGCTCTAACTCTCCTCT
Applications Binding to target proteins
Target information
Type Detail Type Detail
Uniprot ID P01552 Protein name Enterotoxin type B (SEB)
Gene name(s) entB Organism Enterotoxin type B (SEB)
Status reviewed in uniprot database Length 266
Mass 31,436 Activity regulation N/A
Involvement in disease N/A Catalytic activity N/A
PDB ID(s)
1D5M;1D5X;1D5Z;1D6E;1GOZ;1SBB;1SE3;1SE4;1SEB;2SEB;3GP7;3R8B;3SEB;3W2D;4C56;4RGM;4RGN;4RGO;
Function Staphylococcal enterotoxin that activates the host immune system by binding as unprocessed molecules to major histocompatibility (MHC) complex class II and T-cell receptor (TCR) molecules.
Activity data

No relevant experimental diagram

 Interaction ID 128
Target type Protein
Target unique ID P01552
Activity N/A
Binding Conditions/Buffer

10 mM phosphate buffer, 2.7 mM KCl, 140 mM NaCl, 0.05% Tween, pH 7.4
Assay

N/A
PubMed ID 22438927
Similar aptamers
Aptamer ID Aptamer chemistry Sequence Similarity
Apta_128 DNA GGTATTGAGGGTCGCATCCCGTAGTGTGTTCTTATTCGTGTCTGTGTGTGTTCTGTCGGATGGCTCTAACTCTCCTCT
80.77%
Apta_368 DNA GGTATTGAGGGTCGCATCTCAAAAGGGGTGATTGCTTGCACAATGACAGGGTAGGACAGATGGCTCTAACTCTCCTCT 67.95%
Apta_1181 DNA GAATTCAGTCGGACAGCGTAGTAAGAATCTGTTTCTGGTCCTAGTCTTGCTTGTGTTTCCTGATGGACGAATATCGTCTCCC 58.54%
Apta_769 DNA GAATTCAGTCGGACAGCGAGTTGTTGTTAGGGTGTTGGGTTGGGGTTTTAGGGTCCCTGTCGTCGATGGACGAATATCGTCTCCC 56.47%
Apta_773 DNA GAATTCAGTCGGACAGCGGTGGTGCTTGTGTATGGGGGTGGTTGGTGGGTTTTATGCTGCTGGATGGACGAATATCGTCTCCC 55.42%
Apta_1180 DNA GAATTCAGTCGGACAGCGCAATTGTGGTTCTTACCCTATCCCTTGTGTTTGGCGTTCGTTGCGATGGACGAATATCGTCTCCC 55.42%
Apta_768 DNA GAATTCAGTCGGACAGCGGCACTTGCGACACGTTTGTCGGGTAAATGCGTGTATTTTCTTTTCGATGGACGAATATCGTCTCCC 54.76%
Apta_1182 DNA GAATTCAGTCGGACAGCGTCAGTCGTCCCTTTATGCTTGGTGCTCACCGTCTGAATTTCTTCAGATGGACGAATATCGTCTCCC 54.76%
Apta_772 DNA GAATTCAGTCGGACAGCGCGGTGTTGGTGGTGGGGTGGTTTGGGAATCTGTTCGGCTGGAGATGGACGAATATCGTCTCCC 54.32%
Apta_1184 DNA GAATTCAGTCGGACAGCGTAATCCCTTGTGTTTGACGTTCGAAGATTATTTCTATCTTTTAGGATGGACGAATATCGTCTCCC 54.22%
Apta_140 DNA GGCAGGAAGACAAACACGATGGGGGGGTATGATTTGATGTGGTTGTTGCATGATCGTGGTCTGTGGTGCTGT 53.85%
Apta_774 DNA GAATTCAGTCGGACAGCGAGGAAAATTTCGTTATTTTCGTTTCCGGGAACTCGGGCATTTAGAGATGGACGAATATCGTCTCCC 53.57%
Apta_775 DNA GAATTCAGTCGGACAGCGCGGTGTTGGTGGCGGGGGTGGTTGGGGGATTTGGCTGTCCTGAGTGATGGACGAATATCGTCTCCC 53.57%
Apta_1183 DNA GAATTCAGTCGGACAGCGGCGTGAGTCTTTTGCGGTGGCTCGGGTTCGAATATCTACGACCTTGATGGACGAATATCGTCTCCC 53.57%
Apta_626 DNA ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT 52.58%
Apta_626 DNA ATACCAGCTTATTCAATTGGTGGTAGGATGGGCTCGATCGAGGTCTTCAGTCGGCTCGGTTTAGTTTATGTTCTCCTGTAGATAGTAAGTGCAATCT 52.58%
Apta_883 DNA CGTACCGGCCAGTGATTACGACGAGACGAGCTTATGCGTATTGATGCCTAACTATCTACA 52.56%
Apta_403 DNA GTCTTGACTAGTTACGCCCCCAAGAACCCGCTTGCCGTGGTGACGTTGATCATGTCGTTTGGTCATTCAGTTGGCGCCTC 52.50%
Apta_281 DNA CCGTAATACGACTCACTATAGGGGAGCTCGGTACCGAATTCATGTTGGTAGTTGGCTTGTGTTCGTGTGTTAAGCTTTCAGAGAGGATCCTT 52.17%
Apta_570 DNA GGCAAGATGTGCCCAGAACAGTTGCTTGTATGGTGGGGAGCGTCCATATTGGCTTAAAC 51.28%

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AptaDB is an online database we developed to integrate comprehensive information about aptamer.
The detail of this database is described here:

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